Alternatives and similar repositories for partig

Users that are interested in partig are comparing it to the libraries listed below

• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• VGP / vgp-tools
  ☆28Updated 6 months ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated this week
• bcgsc / physlr
  Construct a Physical Map from Linked Reads
  ☆18Updated last year
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 3 years ago
• lh3 / gffio
  ☆32Updated 2 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• rlorigro / nanopore_assembly_and_polishing_assessment
  Automation of pipelines that depend on preexisting assembly, polishing, and alignment tools. Performance evaluation and visualization of …
  ☆14Updated 5 years ago
• natir / fpa
  Filter of Pairwise Alignement
  ☆44Updated 3 years ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆27Updated last year
• tlemane / kmdiff
  Differential k-mer analysis
  ☆37Updated last year
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated last week
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated last year
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 3 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆21Updated 7 months ago
• nluhmann / BlastFrost
  ☆44Updated 3 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆30Updated 3 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated this week
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆25Updated 11 months ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆15Updated 7 years ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆16Updated last year
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆29Updated 2 months ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 3 years ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 5 months ago